Base-pair frequencies

predominant_types
Base-pair types shown in bold in the published table (most frequent).
covarying_types
Base-pair types marked * in the published table (involved in a covariation).
header_format
legacy = entry not yet revised to the v4 layout (no type / conformation).

832 rows where conformation = "cWW", group_code = "E" and molecule = "23S" sorted by position_1

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strength 5

molecule 1

  • 23S · 832 ✖

header_format 1

group_code 1

conformation 1

  • cWW · 832 ✖
Link rowid molecule helix_number position_1 ▼ position_2 pair_note header_format reference_base_pair conformation ai_code tertiary_type header_extra strength group_code GC CG UA AU GU UG AA AC AG CA CC CU GA GG UC UU gap Seq predominant_types covarying_types
3520 3520 23S 1 1 2902   v4 G:C cWW       Strong E                                 100.0 40    
3527 3527 23S 1 2 2901   v4 G:C cWW       Strong E                                 100.0 40    
3534 3534 23S 1 3 2900   v4 U:A cWW       Strong E                                 100.0 41    
3541 3541 23S 1 4 2899   v4 U:A cWW       Strong E             2.4                   97.5 41 AA  
3548 3548 23S 1 5 2898   v4 A:U cWW       Strong E         2.4                       97.5 41 GU  
3555 3555 23S 1 6 2897   v4 A:U cWW       Strong E             2.4                   97.4 41 AA  
3562 3562 23S 1 7 2896   v4 G:C cWW       Strong E             2.4                   97.6 41 AA  
3569 3569 23S 1 8 2895   v4 C:G cWW       Weak E   2.4                             97.4 41 CG  
3576 3576 23S 2 15 525   v4 G:U cWW       Strong E 0.9 71.6 4.3 1.7 8.6       3.4 4.3   1.7 0.9   0.9   1.8 116 CG,UA,GU,AG,CA CG,UA,GU
3583 3583 23S 2 16 524   v4 C:G cWW       Strong E 7.8 9.5 64.7 0.9 4.3 7.8     0.9 1.7 1.7           0.9 116 GC,CG,UA,GU,UG GC,CG,UA,AU
3590 3590 23S 2 17 523   v4 G:C cWW       Strong E   37.1 54.3 1.7 0.9 0.9           3.4         1.8 116 CG,UA,CU CG,UA,AU
3597 3597 23S 2 18 522   v4 U:A cWW       Strong E 9.5 6.0 65.5 1.7   10.3     0.9     0.9 0.9 0.9   2.6 0.9 116 GC,CG,UA,UG,UU GC,CG,UA,AU
3604 3604 23S 2 19 521   v4 A:U cWW       Strong E 0.9 47.4 31.0 11.2 1.7 0.9 3.4       0.9     1.7     0.9 116 CG,UA,AU,AA GC,CG,UA,AU
3611 3611 23S 2 20 520   v4 C:G cWW       Strong E 14.7 13.8 2.6 62.1 0.9 1.7   0.9             0.9 1.7 0.9 116 GC,CG,UA,AU GC,CG,UA,AU
3618 3618 23S 2 21 519   v4 A:U cWW       Strong E 31.9 2.6 2.6 34.5 25.0             1.7       0.9 0.9 116 GC,CG,UA,AU,GU GC,CG,UA,AU
3625 3625 23S 2 22 518   v4 C:G cWW       Strong E   94.8 1.7     0.9       1.7             0.9 116 CG CG,UA
3632 3632 23S 2 23 517   v4 G:C cWW       Strong E 33.6   0.9 51.7 8.6   0.9   3.4               0.9 116 GC,AU,GU,AG GC,UA,AU
3639 3639 23S 2 24 516   v4 G:C cWW       Strong E 25.0   6.9 62.9   0.9   0.9   2.6             0.9 116 GC,UA,AU,CA GC,UA,AU
3646 3646 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong E 30.8 44.4 1.7 17.1   4.3                     1.8 117 GC,CG,AU,UG GC,CG,UA,AU
3653 3653 23S 3 31 474   v4 C:G cWW       Strong E 2.6 4.3 55.2 28.4 0.9 2.6     0.9               5.2 116 GC,CG,UA,AU,UG GC,CG,UA,AU
3660 3660 23S 3 32 473   v4 C:G cWW       Strong E   87.1 0.9 8.6   0.9               0.9     1.8 116 CG,AU CG,UA,AU
3667 3667 23S 4 35 445   v4 G:C cWW       Strong E 96.5     0.9                         2.6 115 GC GC,AU
3674 3674 23S 4 36 444   v4 G:C cWW       Strong E 96.6 0.9   0.9                         1.7 116 GC GC,CG,AU
3681 3681 23S 4 37 442   v4 C:G cWW       Strong E 3.5 73.9 4.3 3.5   13.9                     0.9 115 GC,CG,UA,AU,UG GC,CG,UA,AU
3688 3688 23S 4 38 441   v4 A:U cWW       Strong E 0.9 1.7 90.4 6.1                         0.9 115 UA,AU GC,CG,UA,AU
3695 3695 23S 4 39 440   v4 G:C cWW       Strong E   77.4 16.5 5.2                         0.9 115 CG,UA,AU CG,UA,AU
3702 3702 23S 4 40 439   v4 U:A cWW       Strong E 20.9 32.2 29.6 11.3 0.9 3.5           0.9         0.9 115 GC,CG,UA,AU,UG GC,CG,UA,AU
3709 3709 23S 4 41 438   v4 C:G cWW       Strong E 5.2 62.6 24.3 6.1               0.9         0.9 115 GC,CG,UA,AU GC,CG,UA,AU
3716 3716 23S 4 42 437   v4 A:U cWW       Strong E 60.9 0.9 10.4 25.2 0.9     0.9                 0.9 115 GC,UA,AU GC,CG,UA,AU
3723 3723 23S 4 43 436   v4 G:C cWW       Strong E 6.9 68.1 12.1 8.6             0.9       0.9   2.6 116 GC,CG,UA,AU GC,CG,UA,AU
3730 3730 23S 4 44 434   v4 A:U cWW       Strong E 9.6   9.6 38.3 6.1 1.7 7.8 6.1 12.2   0.9   5.2 1.7     0.9 115 GC,UA,AU,GU,AA,AC,AG,GA GC,UA,AU
3737 3737 23S 4 45 433   v4 G:C cWW       Strong E   0.9 3.4 10.3 7.8 6.9 0.9 9.5     0.9       19.0 30.2 10.5 116 UA,AU,GU,UG,AC,UC,UU CG,AC,UU
3744 3744 23S 4.1 46 179   v4 G:C cWW       Strong E     8.6                           91.4 116 UA  
3751 3751 23S 4.1 47 178   v4 C:G cWW       Strong E   97.4 0.9                           1.8 114 CG CG,UA
3765 3765 23S 5 54 116   v4 G:C cWW       Strong E 24.8       73.5               0.9       0.9 117 GC,GU  
3772 3772 23S 5 55 115   v4 G:C cWW       Strong E 21.4 0.9   73.5 3.4                       0.9 117 GC,AU,GU GC,CG,AU
3779 3779 23S 5 56 114   v4 A:U cWW       Strong E 6.8 8.5 5.1 78.6                         0.9 117 GC,CG,UA,AU GC,CG,UA,AU
3786 3786 23S 6 57 70   v4 C:G cWW       Strong E   98.3                             1.6 118 CG  
3793 3793 23S 6 58 69   v4 G:C cWW       Strong E 94.9     0.8 2.5     0.8                 0.8 118 GC,GU GC,AU
3800 3800 23S 6 59 68   v4 U:G cWW       Strong E   76.3 10.2     12.7                     0.8 118 CG,UA,UG CG,UA
3807 3807 23S 6.1 61 93   v4 C:G cWW   3°: pseudoknot   Strong E           0.9                     99.1 117    
3814 3814 23S 6.1 62 92   v4   cWW   3°: pseudoknot   Strong E                           0.9     99.1 117    
3821 3821 23S 6.1 64 90   v4 A:U cWW   3°: pseudoknot   Significant E     0.8                           99.1 118    
3828 3828 23S 6.1 65 89   v4 U:A cWW   3°: pseudoknot   Strong E                             0.8   99.1 118    
3835 3835 23S 6.1 66 88   v4 C:G cWW   3°: pseudoknot   Weak E                   0.8             99.1 118    
3849 3849 23S 7 76 110   v4 C:G cWW       Strong E 4.2 2.5 7.6     48.7       13.4   0.8   2.5 7.6 1.7 10.9 119 GC,CG,UA,UG,CA,GG,UC GC,UG,CA
3856 3856 23S 7 77 109   v4 G:C cWW       Strong E 22.7 2.5 0.8 3.4 2.5     53.8     4.2 1.7     0.8   7.5 119 GC,CG,AU,GU,AC,CC CG,UA,GU,AC
3863 3863 23S 7 78 108   v4 U:G cWW       Strong E 11.8 1.7 10.1 45.4 15.1 1.7 1.7 1.7             0.8 2.5 7.5 119 GC,UA,AU,GU,UU GC,CG,UA,AU
3870 3870 23S 7 79 107   v4 C:G cWW       Strong E 4.2 1.7 76.5   0.8 7.6           0.8 0.8 0.8     6.7 119 GC,UA,UG GC,CG,UA
3877 3877 23S 7 80 106   v4 G:C cWW       Strong E 67.2 3.4 3.4 11.8 3.4     1.7         1.7   0.8   6.7 119 GC,CG,UA,AU,GU GC,CG,UA,AU
3884 3884 23S 7 81 105   v4 G:C cWW       Strong E     0.8   0.8                       98.3 119   UA,GU
3898 3898 23S 7 85 97   v4 G:C cWW       Strong E                         0.8       99.2 120    
3905 3905 23S 7 86 96   v4 G:C cWW       Strong E 0.8                               99.2 120    
3912 3912 23S 7 87 95   v4 U:A cWW       Strong E 0.8                               99.2 120    
3919 3919 23S 8 121 130   v4 G:C cWW       Strong E 80.0       5.0     3.3 0.8               10.8 120 GC,GU,AC GC,AG
3926 3926 23S 8 122 129   v4 G:C cWW       Strong E 0.8 75.8 7.5 0.8   2.5         0.8           11.6 120 CG,UA,UG GC,CG,UA,AU
3933 3933 23S 8 123 128   v4 G:C cWW       Strong E 0.8 0.8 0.8     0.8                     96.6 120   GC,CG,UA
3940 3940 23S 9 131 148   v4 A:U cWW       Strong E 54.1 2.5   14.8 8.2                       20.4 122 GC,CG,AU,GU GC,CG,AU
3947 3947 23S 9 132 147   v4 G:C cWW       Strong E 14.9 56.2 1.7 1.7 2.5 1.7                     21.5 121 GC,CG,GU GC,CG,UA,AU
3954 3954 23S 9 133 146   v4 U:A cWW       Strong E 0.8 36.9 21.3 12.3   0.8     12.3       0.8     0.8 13.9 122 CG,UA,AU,AG GC,CG,UA,AU
3961 3961 23S 9 134 145   v4 G:C cWW       Strong E 3.3 46.7 8.2 1.6 0.8 9.8         3.3 9.0         17.1 122 GC,CG,UA,UG,CC,CU GC,CG,UA,AU
3968 3968 23S 9 135 144   v4 U:A cWW       Strong E 10.7 37.7 7.4 3.3   4.1 0.8     5.7   4.1 4.1     1.6 20.5 122 GC,CG,UA,AU,UG,CA,CU,GA GC,CG,UA,AU
3975 3975 23S 9 136 143   v4 G:C cWW       Strong E 13.1 17.2 19.7 4.9   3.3 3.3 1.6 8.2     0.8   0.8   0.8 26.2 122 GC,CG,UA,AU,UG,AA,AG GC,CG,UA,AU
3982 3982 23S 9 137 142   v4 U:A cWW       Strong E 26.2 2.5 8.2 1.6 2.5 13.9 2.5 4.9 1.6       3.3     1.6 31.1 122 GC,CG,UA,GU,UG,AA,AC,GA GC,UG,AA
3989 3989 23S 10 150 176   v4 U:A cWW       Strong E   43.3 45.0             0.8             10.9 120 CG,UA CG,UA
3996 3996 23S 10 151 175   v4 C:G cWW       Strong E 45.8 5.0 5.8 7.5 20.8             0.8       3.3 10.8 120 GC,CG,UA,AU,GU,UU GC,CG,UA,AU
4003 4003 23S 10 152 174   v4 A:U cWW       Strong E 2.5 45.0 5.0 0.8   20.8       10.8       0.8   2.5 11.7 120 GC,CG,UA,UG,CA,UU GC,CG,UA,AU
4010 4010 23S 10 153 173   v4 U:A cWW       Strong E 2.5 68.3 10.0 5.0 0.8         0.8 0.8         0.8 10.8 120 GC,CG,UA,AU GC,CG,UA,AU
4017 4017 23S 10 154 172   v4 U:A cWW       Strong E 2.5 10.0 66.7 7.5 0.8                   0.8 0.8 10.9 120 GC,CG,UA,AU GC,CG,UA,AU
4024 4024 23S 10 155 171   v4 A:U cWW       Strong E 65.8 6.7 4.2 5.0 2.5 1.7   0.8 0.8   0.8       0.8 0.8 10.0 120 GC,CG,UA,AU,GU GC,CG,UA,AU
4031 4031 23S 10 156 170   v4 A:U cWW       Strong E 9.2 12.5 51.7 8.3 0.8 2.5     0.8 0.8   0.8 0.8   0.8 0.8 10.0 120 GC,CG,UA,AU,UG GC,CG,UA,AU
4038 4038 23S 10 157 169   v4 C:G cWW       Strong E 2.5 25.8 37.5 5.0 0.8 9.2     1.7   0.8           16.6 120 GC,CG,UA,AU,UG GC,CG,UA,AU
4045 4045 23S 10 158 168   v4 U:G cWW       Weak E 4.2 2.5 73.3 0.8   0.8 1.7           2.5     0.8 13.3 120 GC,CG,UA,GA GC,CG,UA,AU
4052 4052 23S 11 183 214   v4 C:G cWW       Strong E   94.4 5.1           0.6                 178 CG,UA CG,UA
4059 4059 23S 11 184 212   v4 C:G cWW       Strong E 6.7 91.6 1.7                             178 GC,CG GC,CG,UA
4066 4066 23S 11 185 211   v4 G:C cWW       Strong E 3.9 94.4 0.6     0.6       0.6               179 GC,CG GC,CG,UA
4073 4073 23S 11 186 210   v4 G:C cWW       Strong E 82.7 7.3 6.7 1.7 1.1     0.6                   179 GC,CG,UA GC,CG,UA,AU
4080 4080 23S 11 187 209   v4 G:C cWW       Strong E   89.3 10.1     0.6                       178 CG,UA CG,UA
4087 4087 23S 11 188 208   v4 G:C cWW       Strong E 2.2   85.5     1.7       10.1     0.6         179 GC,UA,CA GC,UA
4094 4094 23S 11 194 201   v4 G:C cWW       Strong E 1.1   98.3                           0.6 179 UA GC,UA
4108 4108 23S 12 224 231   v4 U:A cWW       Strong E 0.5 76.8 2.0 20.2           0.5               198 CG,UA,AU GC,CG,UA,AU
4115 4115 23S 12 225 230   v4 C:G cWW       Strong E 0.5 18.3 78.2             0.5   0.5       1.5 0.5 197 CG,UA GC,CG,UA
4129 4129 23S 13 235 262   v4 U:A cWW       Strong E   0.5 92.5 3.0   2.0                   0.5 1.5 199 UA,AU,UG CG,UA,AU
4136 4136 23S 13 236 261   v4 C:G cWW       Strong E 11.6 71.9 11.6 1.5   0.5       1.5   0.5         1.0 199 GC,CG,UA GC,CG,UA,AU
4143 4143 23S 13 237 260   v4 C:G cWW       Strong E   86.5 4.5     5.5         1.0           2.5 200 CG,UA,UG CG,UA
4150 4150 23S 13 238 259   v4 C:G cWW       Strong E 0.5 87.6 11.9                             201 CG,UA GC,CG,UA
4157 4157 23S 13 239 258   v4 C:G cWW       Significant E 0.5   29.0 0.5 1.5 2.5       9.0 24.0   0.5 1.0 25.5 5.5 0.5 200 UA,UG,CA,CC,UC,UU UA,GU,CC
4164 4164 23S 13 245 253   v4 G:C cWW       Strong E 13.9 0.5   53.2 12.4     19.9                   201 GC,AU,GU,AC GC,CG,AU
4171 4171 23S 13 246 252   v4 C:G cWW       Strong E 1.5 89.1 7.5 1.0   1.0                       201 CG,UA GC,CG,UA,AU
4185 4185 23S 14 266 426   v4 G:C cWW       Strong E 87.1     12.9                           202 GC,AU GC,AU
4192 4192 23S 14 267 425   v4 C:G cWW       Strong E   93.1 5.4 0.5   1.0                       202 CG,UA CG,UA,AU
4199 4199 23S 14 268 424   v4 C:G cWW       Strong E   55.0 38.6     5.4       1.0               202 CG,UA,UG CG,UA
4206 4206 23S 16 271 366   v4 G:C cWW       Strong E   8.3 2.5 3.4 0.5 6.9 0.5 1.0 2.9   0.5     2.5 9.8 2.9 58.3 204 CG,UA,AU,UG,AG,GG,UC,UU CG,AU,UC
4213 4213 23S 16 272 365   v4 A:U cWW       Strong E     3.4 3.9 2.5 3.9   4.4 0.5 6.4 0.5 1.0 0.5 2.5 1.0 11.8 57.7 203 UA,AU,GU,UG,AC,CA,GG,UU AC,CA,GG,UU
4220 4220 23S 16 273 364   v4 G:C cWW       Strong E 6.9 1.5 1.0 2.5 4.4   1.5 1.0 5.4 1.0 16.3 0.5   1.0 5.4 3.9 48.0 203 GC,AU,GU,AG,CC,UC,UU UA,GU,AG,CC
4227 4227 23S 16 274 363   v4 C:G cWW       Weak E 0.5 2.9 15.7 0.5 1.0   3.4 7.8 1.0 2.9 4.4 2.0 0.5 0.5 0.5 9.8 46.6 204 CG,UA,AA,AC,CA,CC,CU,UU CG,UA,GU,AC
4234 4234 23S 18 281 359   v4 C:G cWW       Weak E 8.8 3.4   1.0 1.0         1.5 1.5 5.9   2.5   0.5 74.0 204 GC,CG,CU,GG GC,CU
4241 4241 23S 18 282 358   v4 A:U cWW       Strong E 2.9 2.0 3.9 0.5 0.5 1.5 0.5 0.5   1.0 1.0 6.9   3.9 2.9 1.0 71.1 204 GC,CG,UA,CU,GG,UC UA,AC,CU,GG
4248 4248 23S 18 283 357   v4 G:C cWW       Strong E 2.0 6.4 3.4 5.4 1.0 0.5 1.5 0.5 1.0 1.0 1.5 0.5 1.0 1.5 3.0 1.5 68.5 203 GC,CG,UA,AU,UC GC,CG,UA,AU
4255 4255 23S 18 284 356   v4 U:G cWW       Weak E 4.4 5.4 1.0 12.7 11.8 1.0 1.5 2.9 2.9 0.5 6.4   1.5 4.4 9.3 3.4 30.9 204 GC,CG,AU,GU,AC,AG,CC,GG,UC,UU CG,AU,GA,UC

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CREATE TABLE "basepair_frequency" (
   "molecule" TEXT,
   "helix_number" TEXT,
   "position_1" INTEGER,
   "position_2" INTEGER,
   "pair_note" TEXT,
   "header_format" TEXT,
   "reference_base_pair" TEXT,
   "conformation" TEXT,
   "ai_code" TEXT,
   "tertiary_type" TEXT,
   "header_extra" TEXT,
   "strength" TEXT,
   "group_code" TEXT,
   "GC" REAL,
   "CG" REAL,
   "UA" REAL,
   "AU" REAL,
   "GU" REAL,
   "UG" REAL,
   "AA" REAL,
   "AC" REAL,
   "AG" REAL,
   "CA" REAL,
   "CC" REAL,
   "CU" REAL,
   "GA" REAL,
   "GG" REAL,
   "UC" REAL,
   "UU" REAL,
   "gap" REAL,
   "Seq" INTEGER,
   "predominant_types" TEXT,
   "covarying_types" TEXT
);
CREATE INDEX "idx_basepair_frequency_molecule_position_1_position_2"
    ON "basepair_frequency" ("molecule", "position_1", "position_2");